Page Comparison

MATLAB

Yes

• Install with default options

• Set startup file to run for all users (see installation details

• )

2021a or later

Toolboxes <required>: database; image processing; signal processing; statistics and machine learning; <optional> parallel processing, optimization

Optional (required for some functions): see installation details.

MRICroGL

No, but a useful backup conversion tool

NITRC (or google it); the download is a zipped file. Unzip; copy the “mricrogl” folder to “C:\Program Files\”; right-click over “MRIcroGL.exe” and add to taskbar

Worth keeping up to date to ensure compatibility with lastest DICOM files; also there is a fair amount of development, so bug fixes and new features

MRIcronN

Semi-obsolete as Chris Rorden wants to only develop MRICroGL; but still a great nifti viewer

Same instructions as MRICroGL

Ghostscript

Helpful for CSPM figure printing

Install latest Ghostscript open source software (http://ghostscript.com/download/gsdnld.html)

Current (depends on "export_fig" MATLAB add-on requirements)

MySQL/MariaDB

Yes (but usually provided by IT)

• Uninstall any previous versions; you may want to delete the data (backup the database before), which is in C:\ProgramData\MySQL. The folder is hidden, so type in the address; delete the MySQL folder.

• Google "mysql community server"; download and run "MySQL Installer"; choose the large file (~270MB in 2014) as this is more reliable than the other. (see details below)

• Run the downloaded installer; choose custom installation, and select the 64-bit MySQL Server, the Workbench, and the Connector/J. § (see details below)

• Choose the default options; write down the password for the "root" account (root is a common term for Administrator account); there is no need to create user accounts.

Latest version; as of writing, we are on version 5.6.

The Workbench is significantly updated as of version 6.1.

Office

No - Used for saving subject information, timetrend files, MRI plots, documentation

Normal installation.

Any version since 2003.

CorelDraw

No - used for saving summaries of plots and MRI figures (check reg)

Normal installation (start once, get rid of splash screen)

Any recent version

VMware Player

No - required for Linux programs (FSL, FreeSurfer)

• Google VMware Player; you will probably land on the VMware downloads page, which has VMware Player right at the botttom (link on right of page). Download- you probably need to register (but it's free).

• Normal installation - take defaults.

Version 6 and above

PuTTY

No - required for CSPM to run commands in Linux

Google PuTTY, go to the downloads page, choose the Windows installer, install with default options.

Any recent version

Python

No - used for utilities (bruker2nifti for starters)

• Check you current installation: in MATLAB, type >> pyenv. This will return if installed on the computer, and it will show the version

• In install or update, go to phython.org, download and install the latest version (details)

Depends on python libraries being used

SAS

No - used for Repeated Measures ANOVA analysis of fMRI and physiology

Standard installation.

Any version.

MRIConvert

Not recommended; used to work ~2015

* dcm2nii that comes with mricron may be better

Install under folder C:\Program FIles (x86)\MRIConvert (win32 version)

Google - as of 2020-07 https://lcni.uoregon.edu/downloads/mriconvert/

Any

version